View source for User:Wayne Decatur/Haloarcula Large Ribosomal Subunit With Azithromycin

[http://en.wikipedia.org/wiki/Azithromycin Azithromycin] is a 15-membered macrolide [http://en.wikipedia.org/wiki/Antibiotic antibiotic] of the azalide subclass. The structure of this clinically important antibiotic has been solved bound to the ''Haloarcula marismortui'' large ribosomal subunit revealing its mode of inhibiting protein synthesis<ref>PMID: 12150912</ref><ref>PMID: 15851032</ref>.

The basic details of the [[Large Ribosomal Subunit of Haloarcula|''Haloarcula marismortui'' large ribosomal]] subunit are described in '''[[Large Ribosomal Subunit of Haloarcula|its own entry]]''' while the structure of azithromycin (zithromax) and its interaction with the [[ribosome]] are shown below on this page.

==Mechanism of action==
{|
|-valign="top"
| <applet load='Azithromycin.pdb‎' size='390' frame='true' align='left' scene='User:Wayne_Decatur/Sandbox_Haloarcula_Large_Ribosomal_Subunit_With_Azithromycin/Azithromycin/2' />
||
|<table width='410' align='left' cellpadding='5'><tr><td rowspan='2'>&nbsp;</td><td bgcolor='#eeeeee'><applet load='1m1kalphac.pdb.gz' size='410' frame='true' align='right' scene='User:Wayne_Decatur/Sandbox_Haloarcula_Large_Ribosomal_Subunit_With_Azithromycin/1m1kazo/2' /></td></tr><tr><td bgcolor='#eeeeee'><center>'''Azithromycin bound to the Large Ribosomal Subunit''' ([[1m1k]]), resolution 3.2&Aring; (<scene name='User:Wayne_Decatur/Sandbox_Haloarcula_Large_Ribosomal_Subunit_With_Azithromycin/1m1kazo/2'>initial scene</scene>). <br>
·· {{Link Toggle halolsuriborRNAb}} ·· {{Link Toggle halolsu23SrRNAb}} ·· {{Link Toggle halolsu5SrRNAb}} ··<br>·· {{Link Toggle 70SriboProtein}} ·· {{Link Toggle BlackWhiteBackground}}  ··</center></td></tr></table>
|}

<scene name='User:Wayne_Decatur/Sandbox_Haloarcula_Large_Ribosomal_Subunit_With_Azithromycin/1m1kazo/4'>Azithromycin sits in the tunnel where it would occlude the nascent polypeptide chain from transiting through the subunit</scene>.

'''Summary: Azithromycin, like other macrolides, binds in [[Large Ribosomal Subunit of Haloarcula#Polypeptide Exit Tunnel:|the polypeptide exit tunnel]] near its start [[Large Ribosomal Subunit of Haloarcula#Polypeptide Exit Tunnel:|the polypeptide exit tunnel]] inhibiting protein synthesis by blocking the progression of nascent polypeptides through the tunnel.''' '''[[Large Ribosomal Subunit of Haloarcula#Polypeptide Exit Tunnel:|The polypeptide exit tunnel]]''' is described '''[[Large Ribosomal Subunit of Haloarcula#Polypeptide Exit Tunnel:|here]]'''.

==About this Structure==
[[1m1k]] is a 30 chains structure of sequences from [http://en.wikipedia.org/wiki/Haloarcula_marismortui Haloarcula marismortui]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M1K OCA]. A version of [[1m1k]] optimized for use online as described [[User:Wayne Decatur/Interactions between Antibiotics and the Ribosome|here]] is used on this page. You may wish to examine the [[Large Ribosomal Subunit of Haloarcula|basics of the subunit]].

==Reference for the Structure==
<ref group="xtra">PMID: 12150912</ref><references group="xtra"/>

==Related Structures==
*[[Large Ribosomal Subunit of Haloarcula|Haloarcula Large Ribosomal Subunit]]
*[[User:Wayne Decatur/Interactions between Antibiotics and the Ribosome|Interactions between Antibiotics and the Ribosome]]
*[[1nwy]] The Large Ribosomal Subunit From ''Deinococcus radiodurans'' complexed with Azithromycin<ref>PMID: 12623020</ref> 
*[[1yhq]] ''Haloarcula marismortui'' large ribosomal subunit containing the mutation G2099A (A2058 in ''E. coli'') complexed with Azithromycin - despite the change to the eubacterial-like adenosine at this position azithromycin binds essentially the same way to either Haloarcula subunit<ref>PMID: 15851032</ref>
*[[1kd1]] The Large Ribosomal Subunit From ''H. marismortui'' complexed with the 16-membered macrolide spiramycin<ref>PMID: 12150912</ref>
*[[1k9m]] The Large Ribosomal Subunit From ''H. marismortui'' complexed with the 16-membered macrolide Tylosin<ref>PMID: 12150912</ref>
*[[1k8a]] The Large Ribosomal Subunit From ''H. marismortui'' complexed with the 16-membered macrolide Carbomycin A<ref>PMID: 12150912</ref>
*[[3cc2]] The refined structure of the Large Ribosomal Subunit From ''H. marismortui''<ref>PMID: 18455733</ref>

==References==
<references />

==Additional Literature and Resources==
<ref group="xtra">PMID: 18382121</ref><ref group="xtra">PMID: 15680981</ref><references group="xtra"/> 
*[http://www.drugbank.ca/drugs/DB00207 Azithromycin at the DrugBank database]
*[http://www.drugs.com/zithromax.html Azithromycin (zithromax) at Drugs.com]
*[http://en.wikipedia.org/wiki/Azithromycin Azithromycin at Wikipedia]
[[Category: Haloarcula marismortui]]
[[Category: Ban, N.]]
[[Category: Hansen, J L.]]
[[Category: Ippolito, J A.]]
[[Category: Moore, P B.]]
[[Category: Nissen, P.]]
[[Category: Steitz, T A.]]
[[Category: Azithromycin]]
[[Category: Zithromax]]
[[Category: Haloarcula]]
[[Category: Macrolide]]
[[Category: Azalide]]
[[Category: Antibiotic]]
[[Category: 50S]]
[[Category: Large ribosomal subunit]]
[[Category: Ribosome]]